Results 41 to 50 of about 4,988,216 (324)

SINA: Accurate high-throughput multiple sequence alignment of ribosomal RNA genes

Bioinform., 2012
MOTIVATION In the analysis of homologous sequences, computation of multiple sequence alignments (MSAs) has become a bottleneck. This is especially troublesome for marker genes like the ribosomal RNA (rRNA) where already millions of sequences are publicly
Elmar Pruesse, J. Peplies, F. Glöckner
semanticscholar   +1 more source

Lower bounds on multiple sequence alignment using exact 3-way alignment

BMC Bioinformatics, 2007
Background Multiple sequence alignment is fundamental. Exponential growth in computation time appears to be inevitable when an optimal alignment is required for many sequences. Exact costs of optimum alignments are therefore rarely computed. Consequently
Colbourn Charles J, Kumar Sudhir
doaj   +1 more source

Local Alignment of DNA Sequence Based on Deep Reinforcement Learning

IEEE Open Journal of Engineering in Medicine and Biology, 2021
Goal: Over the decades, there have been improvements in the sequence alignment algorithm, with significant advances in various aspects such as complexity and accuracy. However, human-defined algorithms have an explicit limitation in view of developmental
Yong-Joon Song, Dong-Ho Cho
doaj   +1 more source

Pairwise alignment incorporating dipeptide covariation

, 2005
Motivation: Standard algorithms for pairwise protein sequence alignment make the simplifying assumption that amino acid substitutions at neighboring sites are uncorrelated.
Altschul, Altschul, Altschul, Altschul, Bailey, Bishop, Brenner, Cline, Crooks, DOOLITTLE, Frith, Fukami-Kobayashi, G. E. Crooks, Goldman, Gonnet, Henikoff, Henikoff, Jung, Karplus, Lin, Muller, Murzin, Park, Pearson, R. E. Green, RODIONOV, S. E. Brenner, Sander, Smith, Thorne, Thorne, Thorne, Topham, Weiss, Zachariah   +34 more
core   +1 more source

Aligning Multiple Sequences with Genetic Algorithm [PDF]

, 2009
The alignment of biological sequences is a crucial tool in molecular biology and genome analysis. It helps to build a phylogenetic tree of related DNA sequences and also to predict the function and structure of unknown protein sequences by aligning ...
Adebiyi, E. F., Akinyemi, I. O., Fatumo, S.   +2 more
core   +1 more source

Informer: Beyond Efficient Transformer for Long Sequence Time-Series Forecasting [PDF]

AAAI Conference on Artificial Intelligence, 2020
Many real-world applications require the prediction of long sequence time-series, such as electricity consumption planning. Long sequence time-series forecasting (LSTF) demands a high prediction capacity of the model, which is the ability to capture ...
Haoyi Zhou, Shanghang Zhang, Jieqi Peng, Shuai Zhang, Jianxin Li, Hui Xiong, Wan Zhang   +6 more
semanticscholar   +1 more source

Contextual Multiple Sequence Alignment [PDF]

BioMed Research International, 2005
In a recently proposed contextual alignment model, efficient algorithms exist for global and local pairwise alignment of protein sequences. Preliminary results obtained for biological data are very promising. Our main motivation was to adopt the idea of context dependency to the multiple‐alignment setting.
Gambin, Anna, Otto, Rafał
openaire   +2 more sources

Exact solution of the Bernoulli matching model of sequence alignment [PDF]

, 2008
Through a series of exact mappings we reinterpret the Bernoulli model of sequence alignment in terms of the discrete-time totally asymmetric exclusion process with backward sequential update and step function initial condition. Using earlier results from
G.M Schütz, Majumdar S N Mallick K Nechaev S, Priezzhev V B, Rajewsky N, Sankoff D, V B Priezzhev, Waterman M S   +6 more
core   +1 more source

Bethe Ansatz in the Bernoulli Matching Model of Random Sequence Alignment

, 2008
For the Bernoulli Matching model of sequence alignment problem we apply the Bethe ansatz technique via an exact mapping to the 5--vertex model on a square lattice.
A. M. Vershik, D. Gusfield, D. Sankoff, J. M. Hammersley, Kirone Mallick, M. Ablowitz, M. S. Waterman, R. Dubrin, R. J. Baxter, R. Wagner, S. F. Altschul, S. M. Ulam, Satya N. Majumdar, Sergei Nechaev, V. Dancik   +14 more
core   +3 more sources

Treatment Decision‐Making Roles and Preferences Among Adolescents and Young Adults With Cancer

Pediatric Blood &Cancer, EarlyView.
ABSTRACT Background Decision‐making (DM) dynamics between adolescents and young adults (AYAs) with cancer, parents, and oncologists remain underexplored in diverse populations. We examined cancer treatment DM preferences among an ethnically and socioeconomically diverse group of AYAs and their parents.
Amanda M. Gutierrez, Jill O. Robinson, Wendy A. Allen‐Rhoades, Hadley S. Smith, Isabel Canfield, Rebecca L. Hsu, Sarah R. Scollon, Lauren R. Desrosiers‐Battu, Nicole M. Schneider, Frank Y. Lin, Donald Williams Parsons, Sharon E. Plon, Mary A. Majumder, Janet Malek, Amy L. McGuire   +14 more
wiley   +1 more source